Basic Information
VIS ID
TVIS30011052
Fusion event
HIV-RB1CC1 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr8
Cytoband
q11.23
Reference genome
GRCh37/hg19
Start
53575046/52662486 (Hg38)
End
53575046/52662486 (Hg38)
Orient
-
Location type
Intronic
Target gene
RB1CC1
miRNAs that regulate target gene
hsa-mir-133b ; hsa-mir-375 ; hsa-mir-98-5p ; hsa-mir-193b-3p ; hsa-mir-20a-5p ; hsa-mir-20b-5p ; hsa-mir-224-3p
Nearest miRNA
hsa-mir-124-1/Upstream/9766211; hsa-mir-10400/Downstream/9052302;
Nearest TSS
ENST00000518652/Upstream/916; ENST00000331251/Downstream/51937;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/96419, chr8-CpG: 153/Downstream/50959
Nearest cancer related gene
RB1CC1(TSG, No orient, 0)
Upstream sequence
TTAATTTAGATAGATCTGCCATAATCTTCCTTCATTTATCTCTCAAGTATATTTAGTTTTCTTTATATGTGGTCCAAAGATAACTTAATAAGGTTATTAC
Downstream sequence
TACATACTTTATTGCTACCACAAAGTTTTTTCCTATGCTATATACCAAGTGGCTTATATGTAATAATGTTGTAGGTTTTGTACATCCATCTGATTGCTGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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